cleaning up 3
Merge branch 'master' of https://github.com/gaylel/intrahosts

Conflicts:
	cSIR.o
	cSIR.so
	cSIRmain.R
	cSIRmcmc.R
	cSIRrun.R
	cSIRrunsim.R
	cSIRrunsim.sh
	cSIRsim.R
	leaf.c
	llists.c
	llists.h
	phylo.c
	phylo.h
	simTree.R